<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-3431" version="3.0.1.1" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_1/emdb_relaxed.xsd">
   <admin>
      <current_status>
         <code>REL</code>
         <processing_site>PDBe</processing_site>
      </current_status>
      <sites>
         <deposition>PDBe</deposition>
         <last_processing>PDBe</last_processing>
      </sites>
      <key_dates>
         <deposition>2016-05-09</deposition>
         <header_release>2016-05-18</header_release>
         <map_release>2016-05-18</map_release>
         <update>2016-08-24</update>
      </key_dates>
      <title>Negative Stain EM of NuRD subcomplex of RBBP4 and MTA1 (Human).</title>
      <authors_list>
         <author>Schmidberger JW</author>
         <author>Sharif Tabar M</author>
         <author>Torrado M</author>
         <author>Silva APG</author>
         <author>Landsberg MJ</author>
         <author>Brilault L</author>
         <author>Alqarni S</author>
         <author>Zeng YC</author>
         <author>Parker BL</author>
         <author>Low JKK</author>
         <author>Mackay JP</author>
      </authors_list>
      <keywords>NuRD complex, RBBP4, MTA1, transcription regulation, chromatin, protein structure</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Schmidberger JW</author>
               <author order="2">Sharif Tabar M</author>
               <author order="3">Torrado M</author>
               <author order="4">Silva APG</author>
               <author order="5">Landsberg MJ</author>
               <author order="6">Brilault L</author>
               <author order="7">Alqarni S</author>
               <author order="8">Zeng YC</author>
               <author order="9">Parker BL</author>
               <author order="10">Low JKK</author>
               <author order="11">Mackay JP</author>
               <title>The MTA1 subunit of the nucleosome remodeling and deacetylase complex can recruit two copies of RBBP4/7</title>
               <journal>PROTEIN SCI.</journal>
               <volume>25</volume>
               <first_page>1472</first_page>
               <last_page>1482</last_page>
               <year>2016</year>
               <external_references type="PUBMED">27144666</external_references>
               <external_references type="DOI">doi:10.1002/pro.2943</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Human MTA1 C-terminal truncation mutant (residues 449 to 715) bound to two copies of RBBP4.</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Human MTA1 C-terminal truncation mutant (residues 449 to 715) bound to two copies of RBBP4.</name>
            <oligomeric_state>One copy of MTA1-C binds to two copies of RBBP4.</oligomeric_state>
            <number_unique_components>2</number_unique_components>
            <molecular_weight>
               <experimental units="MDa">0.13</experimental>
               <theoretical units="MDa">0.128</theoretical>
               <method>SDS PAGE</method>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name synonym="MTA (449-715)">Metastasis-associated protein MTA1 C-terminus (449-715)</name>
            <natural_source database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>Human</synonym_organism>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.03</experimental>
               <theoretical units="MDa">0.03</theoretical>
            </molecular_weight>
            <number_of_copies>1</number_of_copies>
            <oligomeric_state>1 X MTA1, 2 X RBBP4</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
               <recombinant_cell>HEK293</recombinant_cell>
               <recombinant_plasmid>pcDNA3.1</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">Q13330</external_references>
            </sequence>
         </protein_or_peptide>
         <protein_or_peptide macromolecule_id="2">
            <name synonym="RBBP4">Histone-binding protein RBBP4</name>
            <natural_source database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>Human</synonym_organism>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.05</experimental>
               <theoretical units="MDa">0.048</theoretical>
            </molecular_weight>
            <number_of_copies>2</number_of_copies>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
               <recombinant_cell>HEK293</recombinant_cell>
               <recombinant_plasmid>pcDNA3.1</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">Q09028</external_references>
            </sequence>
         </protein_or_peptide>
      </macromolecule_list>
   </sample>
   <structure_determination_list>
      <structure_determination structure_determination_id="1">
         <method>singleParticle</method>
         <aggregation_state>particle</aggregation_state>
         <specimen_preparation_list>
            <single_particle_preparation preparation_id="1">
               <concentration units="mg/mL">0.01</concentration>
               <buffer>
                  <ph>8.199999999999999</ph>
                  <details>50 mM HEPES KOH pH 8.2, 150 mM NaCl, 1 mM DTT.</details>
               </buffer>
               <staining>
                  <type>NEGATIVE</type>
                  <details>After an incubation time of 5 min, the grid was blotted and washed with five drops of distilled water, blotted again and subsequently stained with a 2% (w/v) uranyl acetate solution for one minute. Excess stain was then blotted away and the grid allowed to dry under air at ambient
conditions.</details>
               </staining>
               <grid>
                  <details>Glow-discharged, carbon-coated 400-mesh copper grid (GSCu400CC ProSciTech)</details>
               </grid>
               <vitrification>
                  <cryogen_name>NONE</cryogen_name>
                  <instrument>OTHER</instrument>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI TECNAI 12</microscope>
               <illumination_mode>FLOOD BEAM</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>LAB6</electron_source>
               <acceleration_voltage units="kV">120</acceleration_voltage>
               <nominal_defocus_min units="&#181;m">1.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">2.5</nominal_defocus_max>
               <nominal_magnification>54000.0</nominal_magnification>
               <specimen_holder_model>PHILIPS ROTATION HOLDER</specimen_holder_model>
               <date>2015-12-17</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">OTHER</film_or_detector_model>
                     <number_real_images>400</number_real_images>
                  </image_recording>
               </image_recording_list>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>Particles were initially selected manually (1730 particles) then these were used to autopick 12114 particles using RELION. This was reduced to 9000 particles using manual inspection. Use of 2D class averaging reduced count to 4000 particles which were used to generate four 3D classes.</details>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">29.7</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>RELION</name>
                  </software>
               </software_list>
               <number_images_used>4000</number_images_used>
            </final_reconstruction>
            <final_two_d_classification>
               <number_classes>4</number_classes>
            </final_two_d_classification>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="551">
      <file>emd_3431.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>52</col>
         <row>52</row>
         <sec>52</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>52</x>
         <y>52</y>
         <z>52</z>
      </spacing>
      <cell>
         <a units="&#8491;">290.16</a>
         <b units="&#8491;">290.16</b>
         <c units="&#8491;">290.16</c>
         <alpha units="deg">90.0</alpha>
         <beta units="deg">90.0</beta>
         <gamma units="deg">90.0</gamma>
      </cell>
      <axis_order>
         <fast>X</fast>
         <medium>Y</medium>
         <slow>Z</slow>
      </axis_order>
      <statistics>
         <minimum>-0.31457576</minimum>
         <maximum>0.4855015</maximum>
         <average>-0.01756996</average>
         <std>0.05386001</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">5.58</x>
         <y units="&#8491;">5.58</y>
         <z units="&#8491;">5.58</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.068</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Human MTA1 truncation mutant (residues 449 to 715) bound to two copies of RBBP4.</annotation_details>
      <details>::::EMDATABANK.org::::EMD-3431::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>4PBY</access_code>
               <chain>
                  <chain_id>A</chain_id>
               </chain>
               <chain>
                  <chain_id>B</chain_id>
               </chain>
               <chain>
                  <chain_id>C</chain_id>
               </chain>
               <chain>
                  <chain_id>D</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <refinement_space>REAL</refinement_space>
         </modelling>
      </modelling_list>
      <figure_list>
         <figure>
            <file>emd_3431.tif</file>
         </figure>
      </figure_list>
   </interpretation>
   <validation>
      <fsc_curve>
         <file>emd_3431_fsc.xml</file>
      </fsc_curve>
   </validation>
</emd>